Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0450620 | XP_013452038.1 | 94.340 | 53 | 3 | 0 | 6 | 58 | 197 | 249 | 7.43e-28 | 112 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0450620 | A0A072U9H8 | 94.340 | 53 | 3 | 0 | 6 | 58 | 197 | 249 | 3.55e-28 | 112 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0022900 | Msa0450620 | 0.810367 | 1.193815e-50 | -8.615850e-47 |
| Msa0163340 | Msa0450620 | 0.803159 | 3.981287e-49 | -8.615850e-47 |
| Msa0439000 | Msa0450620 | 0.829863 | 4.057774e-55 | -8.615850e-47 |
| Msa0439360 | Msa0450620 | 0.840776 | 7.093671e-58 | -8.615850e-47 |
| Msa0450620 | Msa0481570 | 0.800294 | 1.541930e-48 | -8.615850e-47 |
| Msa0450620 | Msa0951150 | 0.827410 | 1.588585e-54 | -8.615850e-47 |
| Msa0450620 | Msa0987640 | 0.828781 | 7.428382e-55 | -8.615850e-47 |
| Msa0450620 | Msa1445900 | 0.804017 | 2.643067e-49 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0450620 | MtrunA17_Chr6g0467251 | 94.340 | 53 | 3 | 0 | 6 | 58 | 197 | 249 | 6.83e-32 | 112 |
| Msa0450620 | MtrunA17_Chr6g0467121 | 52.830 | 53 | 25 | 0 | 6 | 58 | 232 | 284 | 1.21e-14 | 65.9 |
| Msa0450620 | MtrunA17_Chr6g0467161 | 50.943 | 53 | 26 | 0 | 6 | 58 | 205 | 257 | 1.65e-13 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGAGTTGTTTCTTGAAATT+TGG | 0.165142 | 3_3:+36247380 | None:intergenic |
| GTCCCTCAACGCCGTTAATT+TGG | 0.208641 | 3_3:-36247336 | Msa0450620:CDS |
| CTATCTGGTGCCCACACTTT+TGG | 0.251851 | 3_3:-36247461 | Msa0450620:CDS |
| CCCAATGGCACGTCAAAATC+TGG | 0.255614 | 3_3:+36247610 | None:intergenic |
| CTGCATTTACACTGAAGTTT+AGG | 0.301903 | 3_3:+36247575 | None:intergenic |
| ATCTTTCGTGCAAATGGTAT+TGG | 0.322368 | 3_3:+36247541 | None:intergenic |
| TCTTTCGTGCAAATGGTATT+GGG | 0.365826 | 3_3:+36247542 | None:intergenic |
| ATGATTCGGTTGAACATTGT+TGG | 0.380602 | 3_3:+36247425 | None:intergenic |
| ACCGATGTAGTTGCTCTATC+TGG | 0.387253 | 3_3:-36247476 | Msa0450620:intron |
| TTGAAATTTGGTTCGATTGG+TGG | 0.414542 | 3_3:+36247392 | None:intergenic |
| TGTTCAAACATCCAAATTAA+CGG | 0.445931 | 3_3:+36247325 | None:intergenic |
| ATCCAAATTAACGGCGTTGA+GGG | 0.449517 | 3_3:+36247334 | None:intergenic |
| GTGGGTCGGATTCAATGATT+CGG | 0.450356 | 3_3:+36247411 | None:intergenic |
| TTCTTGAAATTTGGTTCGAT+TGG | 0.452274 | 3_3:+36247389 | None:intergenic |
| TGAAATTTGGTTCGATTGGT+GGG | 0.456433 | 3_3:+36247393 | None:intergenic |
| ATTTGGTTCGATTGGTGGGT+CGG | 0.494826 | 3_3:+36247397 | None:intergenic |
| CCAATGGCACGTCAAAATCT+GGG | 0.508698 | 3_3:+36247611 | None:intergenic |
| GCGTTGAGGGACTCCTCATT+CGG | 0.514253 | 3_3:+36247347 | None:intergenic |
| CTAAACTTCAGTGTAAATGC+AGG | 0.534350 | 3_3:-36247574 | Msa0450620:five_prime_UTR |
| CGAAGCAACATGTCCGAATG+AGG | 0.556767 | 3_3:-36247360 | Msa0450620:CDS |
| CATCCAAATTAACGGCGTTG+AGG | 0.565870 | 3_3:+36247333 | None:intergenic |
| AATGAGCTTGACCAAAAGTG+TGG | 0.611586 | 3_3:+36247450 | None:intergenic |
| ATGAGCTTGACCAAAAGTGT+GGG | 0.655019 | 3_3:+36247451 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGAAAACTATTAACCGTTTT+CGG | - | chr3_3:36247424-36247443 | Msa0450620:CDS | 25.0% |
| !!! | AATTTTTTTGATCCCGAAAA+CGG | + | chr3_3:36247440-36247459 | None:intergenic | 25.0% |
| ! | GAAAACTATTAACCGTTTTC+GGG | - | chr3_3:36247425-36247444 | Msa0450620:CDS | 30.0% |
| ! | TTCTTGAAATTTGGTTCGAT+TGG | + | chr3_3:36247557-36247576 | None:intergenic | 30.0% |
| !! | TCGAGTTGTTTCTTGAAATT+TGG | + | chr3_3:36247566-36247585 | None:intergenic | 30.0% |
| CTGCATTTACACTGAAGTTT+AGG | + | chr3_3:36247371-36247390 | None:intergenic | 35.0% | |
| CTAAACTTCAGTGTAAATGC+AGG | - | chr3_3:36247369-36247388 | Msa0450620:CDS | 35.0% | |
| TCTTTCGTGCAAATGGTATT+GGG | + | chr3_3:36247404-36247423 | None:intergenic | 35.0% | |
| ATCTTTCGTGCAAATGGTAT+TGG | + | chr3_3:36247405-36247424 | None:intergenic | 35.0% | |
| ! | GTTTTCATCTTTCGTGCAAA+TGG | + | chr3_3:36247411-36247430 | None:intergenic | 35.0% |
| !! | ATGATTCGGTTGAACATTGT+TGG | + | chr3_3:36247521-36247540 | None:intergenic | 35.0% |
| ! | TGAAATTTGGTTCGATTGGT+GGG | + | chr3_3:36247553-36247572 | None:intergenic | 35.0% |
| ! | TTGAAATTTGGTTCGATTGG+TGG | + | chr3_3:36247554-36247573 | None:intergenic | 35.0% |
| ACCAGATAGAGCAACTACAT+CGG | + | chr3_3:36247471-36247490 | None:intergenic | 40.0% | |
| ! | ATGAGCTTGACCAAAAGTGT+GGG | + | chr3_3:36247495-36247514 | None:intergenic | 40.0% |
| AATGAGCTTGACCAAAAGTG+TGG | + | chr3_3:36247496-36247515 | None:intergenic | 40.0% | |
| ! | ATCCAAATTAACGGCGTTGA+GGG | + | chr3_3:36247612-36247631 | None:intergenic | 40.0% |
| CCAATGGCACGTCAAAATCT+GGG | + | chr3_3:36247335-36247354 | None:intergenic | 45.0% | |
| !! | CCAGATTTTGACGTGCCATT+GGG | - | chr3_3:36247333-36247352 | Msa0450620:CDS | 45.0% |
| ! | AGGCTGTCTTTTCTTCCCAA+TGG | + | chr3_3:36247351-36247370 | None:intergenic | 45.0% |
| ACCGATGTAGTTGCTCTATC+TGG | - | chr3_3:36247467-36247486 | Msa0450620:CDS | 45.0% | |
| GTGGGTCGGATTCAATGATT+CGG | + | chr3_3:36247535-36247554 | None:intergenic | 45.0% | |
| ! | ATTTGGTTCGATTGGTGGGT+CGG | + | chr3_3:36247549-36247568 | None:intergenic | 45.0% |
| CATCCAAATTAACGGCGTTG+AGG | + | chr3_3:36247613-36247632 | None:intergenic | 45.0% | |
| !! | CCCAGATTTTGACGTGCCAT+TGG | - | chr3_3:36247332-36247351 | Msa0450620:CDS | 50.0% |
| CCCAATGGCACGTCAAAATC+TGG | + | chr3_3:36247336-36247355 | None:intergenic | 50.0% | |
| ! | CTATCTGGTGCCCACACTTT+TGG | - | chr3_3:36247482-36247501 | Msa0450620:intron | 50.0% |
| CGAAGCAACATGTCCGAATG+AGG | - | chr3_3:36247583-36247602 | Msa0450620:five_prime_UTR | 50.0% | |
| GTCCCTCAACGCCGTTAATT+TGG | - | chr3_3:36247607-36247626 | Msa0450620:five_prime_UTR | 50.0% | |
| GCGTTGAGGGACTCCTCATT+CGG | + | chr3_3:36247599-36247618 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 36247331 | 36247634 | 36247331 | ID=Msa0450620;Name=Msa0450620 |
| chr3_3 | mRNA | 36247331 | 36247634 | 36247331 | ID=Msa0450620-mRNA-1;Parent=Msa0450620;Name=Msa0450620-mRNA-1;_AED=0.42;_eAED=0.62;_QI=92|0|0|1|0|0|2|0|58 |
| chr3_3 | exon | 36247527 | 36247634 | 36247527 | ID=Msa0450620-mRNA-1:exon:6649;Parent=Msa0450620-mRNA-1 |
| chr3_3 | exon | 36247331 | 36247488 | 36247331 | ID=Msa0450620-mRNA-1:exon:6648;Parent=Msa0450620-mRNA-1 |
| chr3_3 | five_prime_UTR | 36247543 | 36247634 | 36247543 | ID=Msa0450620-mRNA-1:five_prime_utr;Parent=Msa0450620-mRNA-1 |
| chr3_3 | CDS | 36247527 | 36247542 | 36247527 | ID=Msa0450620-mRNA-1:cds;Parent=Msa0450620-mRNA-1 |
| chr3_3 | CDS | 36247331 | 36247488 | 36247331 | ID=Msa0450620-mRNA-1:cds;Parent=Msa0450620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
